Pingali, M., Singh, A., Singh, V., Sahoo, A., Varadwaj, P., and Samanta, S. 2023. Docking and molecular dynamics simulation for therapeutic repurposing in small cell lung cancer (SCLC) patients infected with COVID-19. Journal of Biomolecular Structure and Dynamics, 41(1), p.16–25.
Agarwal, V., Yadav, T., Tiwari, A., and Varadwaj, P. 2023. Detailed investigation of catalytically important residues of class A $β$-lactamase. Journal of Biomolecular Structure and Dynamics, 41(5), p.2046–2073.
Agarwal, V., Yadav, T., Tiwari, A., and Varadwaj, P. 2023. Insights into structure and activity relationship of clinically mutated PER1 and PER2 class A $\beta$-lactamase enzymes. Journal of Biomolecular Structure and Dynamics, 41(10), p.4295–4312.
Agarwal, V., Tiwari, A., and Varadwaj, P. 2023. An Extensive Review on $\beta$-lactamase Enzymes and their Inhibitors. Current Medicinal Chemistry, 30(7), p.783–808.
Sharma, A., Kumar, R., and Varadwaj, P. 2023. Developing human olfactory network and exploring olfactory receptor-odorant interaction. Journal of Biomolecular Structure and Dynamics, 41(18), p.8941–8960.
Tyagi, P., Semwal, R., Sharma, A., Tiwary, U., and Varadwaj, P. 2023. E-nose: a low-cost fruit ripeness monitoring system. Journal of Agricultural Engineering, 54(1).
Singh, V., Afshan, T., Tyagi, P., Varadwaj, P., and Sahoo, A. 2023. Recent development of multi-targeted inhibitors of human topoisomerase II enzyme as potent cancer therapeutics. International journal of biological macromolecules, 226, p.473–484.
Sharma, A., Kumar, R., and Varadwaj, P. 2023. Smelling the Disease: Diagnostic Potential of Breath Analysis. Molecular Diagnosis & Therapy, p.1–27.
Semwal, R., Aier, I., Tyagi, P., Raj, U., and Varadwaj, P. 2023. DeepLBS: A deep Convolutional Neural Network-Based Ligand-Binding Site Prediction Tool. In 2023 6th International Conference on Information Systems and Computer Networks (ISCON) (pp. 1–4).
Soni, U., Singh, A., Soni, R., Samanta, S., Varadwaj, P., and Misra, K. 2023. Identification of candidate target genes of oral squamous cell carcinoma using high-throughput RNA-Seq data and in silico studies of their interaction with naturally occurring bioactive compounds. Journal of Biomolecular Structure and Dynamics, p.1–21.
Nayak, A., Semwal, R., Varadwaj, P., and Aier, I. 2023. Infections associated with Biologic Therapy: A clinical Meta-Analysis study. International Journal of Pharmaceutical Sciences and Research, 14(5), p.2532–2540.
Biswas, D., Somkuwar, B., Borah, J., Varadwaj, P., Gupta, S., Khan, Z., Mondal, G., Chattoraj, A., and Deb, L. 2023. Phytochemical mediated modulation of COX-3 and NF$κ$B for the management and treatment of arthritis. Scientific Reports, 13(13612 (2023)), p.1–14.
Tyagi, P., Sharma, A., Semwal, R., Tiwary, U., and Varadwaj, P. 2023. XGBoost odor prediction model: finding the structure-odor relationship of odorant molecules using the extreme gradient boosting algorithm. Journal of Biomolecular Structure and Dynamics, p.1–12.
Singh, V., Verma, S., Fatima, F., Samanta, S., Varadwaj, P., and Sahoo, A. 2023. In Silico Study of a Small Bioactive Molecule Targeting Topoisomerase II and P53-MDM2 Complex in Triple-Negative Breast Cancer. ACS omega, 8(41), p.38025–38037.
Pingali, M., Singh, A., Anurag Anand, A., Gupta, S., Sahoo, A., Varadwaj, P., and Samanta, S. 2023. Identification of naturally occurring compounds as alternatives to radiation therapy for treatment of small cell lung cancer: Natural alternatives to radiation therapy for SCLC. Journal of Biomolecular Structure and Dynamics, p.1–12.
Singh, A., Soni, U., Varadwaj, P., Misra, K., and Rizvi, S. 2023. Anti-inflammatory effect of curcumin in an accelerated senescence model of Wistar rat: an in vivo and in-silico study. Journal of Biomolecular Structure and Dynamics, p.1–12.
Chaudhary, A, Singh, V, Varadwaj, P, Mani, A. “Screening natural inhibitors against upregulated G-protein coupled receptors as potential therapeutics of Alzheimer’s disease”. Journal of Biomolecular Structure and Dynamics 2022; 40(2):673–684.
Gupta, S, Singh, V, Varadwaj, P, Chakravartty, N, Katta, A, Lekkala, S, Thomas, G, Narasimhan, S, Reddy, A, Reddy Lachagari, V. “Secondary metabolites from spice and herbs as potential multitarget inhibitors of SARS-CoV-2 proteins”. Journal of Biomolecular Structure and Dynamics 2022; 40(5):2264–2283.
Doharey, P, Singh, V, Gedda, M, Sahoo, A, Varadwaj, P, Sharma, B. “In silico study indicates antimalarials as direct inhibitors of SARS-CoV-2-RNA dependent RNA polymerase”. Journal of Biomolecular Structure and Dynamics 2022; 40(12):5588–5605.
Sharma, A, Saha, B, Kumar, R, Varadwaj, P. “OlfactionBase: a repository to explore odors, odorants, olfactory receptors and odorant–receptor interactions”. Nucleic Acids Research 2022; 50(D1):D678–D686.
Agarwal, V, Tiwari, A, Varadwaj, P. “Prediction of suitable T and B cell epitopes for eliciting immunogenic response against SARS-CoV-2 and its mutant”. Network Modeling Analysis in Health Informatics and Bioinformatics 2022; 11:1–13.
Singh, A, Amod, A, Pandey, P, Bose, P, Pingali, M, Shivalkar, S, Varadwaj, P, Sahoo, A, Samanta, S. “Bacterial biofilm infections, their resistance to antibiotics therapy and current treatment strategies”. Biomedical Materials 2022; 17(2):022003.
Shivalkar, S, Pingali, M, Verma, A, Singh, A, Singh, V, Paital, B, Das, D, Varadwaj, P, Samanta, S. “Outbreak of COVID-19: a detailed overview and its consequences”. Coronavirus Therapeutics–Volume II: Clinical Management and Public Health 2022:23–45.
Singh, A, Amod, A, Pandey, P, Bose, P, Pingali, M, Shivalkar, S, Varadwaj, P, Sahoo, A, Samanta, S. “Recent advances of engineered and artificial drug delivery system towards solid tumor based on immune cells”. Biomedical Materials 2022; 17(2):022003.
Agarwal, V, Yadav, T, Tiwari, A, Varadwaj, P. “Insights into structure and activity relationship of clinically mutated PER1 and PER2 class A $β$-lactamase enzymes”. Journal of Biomolecular Structure and Dynamics 2022:1–18.
Dhara, A, Aier, I, Paladhi, A, Varadwaj, P, Hira, S, Sen, N. “PGC1 alpha coactivates ERG fusion to drive antioxidant target genes under metabolic stress”. Communications Biology 2022; 5(1):416.
Agarwal, V, Tiwari, A, Varadwaj, P. “Mutations responsible for the carbapenemase activity of SME-1”. RSC advances 2022; 12(35):22826–22842.
Gautam, P, Shivalkar, S, Singh, A, Shivapriya Pingali, M, Chaudhary, S, Banerjee, S, Varadwaj, P, Samanta, S. “Bio-inspired Nanocomposites for Remediation of Pharmaceutical Pollutants”. Nanotechnology for Environmental Remediation 2022:323–339.
Sharma, A, Kumar, R, Varadwaj, P. “Developing human olfactory network and exploring olfactory receptor-odorant interaction”. Journal of Biomolecular Structure and Dynamics 2022:1–20.
Sharma, A, Kumar, R, Varadwaj, P. “Decoding Seven Basic Odors by Investigating Pharmacophores and Molecular Features of Odorants”. Current Bioinformatics 2022; 17(8):759–774.
Singh, V, Afshan, T, Tyagi, P, Varadwaj, P, Sahoo, A. “Recent development of multi-targeted inhibitors of human topoisomerase II enzyme as potent cancer therapeutics”. International Journal of Biological Macromolecules 2022.
Singh, V, Agarwal, V, Varadwaj, P, others. “In-Silico Study of Resveratrol as Multi-Edged Potent Inhibitor against SARS-Cov-2 and Variants of Concern Using Molecular Dynamic Simulation and PCA Analysis.”. Current Pharmaceutical Design 2022.
Aier, I., Semwal, R., Raj, U., & Varadwaj, P. (2021). Comparative modeling and structure based drug repurposing of PAX2 transcription factor for targeting acquired chemoresistance in pancreatic ductal adenocarcinoma. Journal of Biomolecular Structure and Dynamics, 39(6), 2071–2078.
Semwal, R., Aier, I., Tyagi, P., & Varadwaj, P. (2021). DeEPn: a deep neural network based tool for enzyme functional annotation. Journal of Biomolecular Structure and Dynamics, 39(8), 2733–2743.
Dubey, A., Singh, V., Doharey, P., Sk, M., Samanta, S., Nema, V., Sharma, B., Varadwaj, P., & Sahoo, A. (2021). Modulating catalytic activity of human topoisomerase II $\alpha$ enzyme by fluorescent gold nanoclusters. International Journal of Biological Macromolecules, 170, 523–531.
Sharma, A., Kumar, R., Ranjta, S., & Varadwaj, P. (2021). SMILES to smell: decoding the structure–odor relationship of chemical compounds using the deep neural network approach. Journal of Chemical Information and Modeling, 61(2), 676–688.
Doharey, P., Singh, V., Gedda, M., Sahoo, A., Varadwaj, P., & Sharma, B. (2021). In silico study indicates antimalarials as direct inhibitors of SARS-CoV-2-RNA dependent RNA polymerase. Journal of Biomolecular Structure and Dynamics, 1–18.
Varadwaj, P., Purohit, N., Lahiri, T., & Antisiperov, V. (2021). Digital signal processing-based approach to identify splicing mutations for detecting genetic diseases. Журнал радиоэлектроники(1), 6–6.
Singh, A., Rana, H., Singh, V., Yadav, T., Varadwaj, P., & Pandey, A. (2021). Evaluation of antidiabetic activity of dietary phenolic compound chlorogenic acid in streptozotocin induced diabetic rats: molecular docking, molecular dynamics, in silico toxicity, in vitro and in vivo studies. Computers in Biology and Medicine, 104462.
Kannan, D., Gurusriram, R., Banerjee, R., Bhattacharjee, S., & Varadwaj, P. (2021). Will there be a third COVID-19 wave? A SVEIRD model based study of Indian situation.. medRxiv.
Das, K., Pingali, M., Paital, B., Panda, F., Pati, S., Singh, A., Varadwaj, P., & Samanta, S. (2021). A detailed review of the outbreak of COVID-19. Front. Biosci.(Landmark Ed.), 26, 149–170.
Mulpuru, V., Semwal, R., Varadwaj, P., & Mishra, N. (2021). HAMP: A Knowledge-base of Antimicrobial Peptides from Human Microbiome. Current Bioinformatics, 16(4), 534–540.
Sharma, A., Kumar, R., & Varadwaj, P. (2021). OBPred: feature-fusion-based deep neural network classifier for odorant-binding protein prediction. Neural Computing and Applications, 33(24), 17633–17646.
Sharma, A., Saha, B., Kumar, R., & Varadwaj, P. (2021). OlfactionBase: a repository to explore odors, odorants, olfactory receptors and odorant–receptor interactions. Nucleic Acids Research.
Banerjee, R., Bhattacharjee, S., & Varadwaj, P. (2021). A study of the COVID-19 epidemic in India using the SEIRD model. Quantitative Biology, 317–328.
Pingali, M., Singh, A., Singh, V., Sahoo, A., Varadwaj, P., & Samanta, S. (2021). Docking and molecular dynamics simulation for therapeutic repurposing in small cell lung cancer (SCLC) patients infected with COVID-19. Journal of Biomolecular Structure and Dynamics, 1–10.
Jayaram, A., Nepomnayshy, D., Brams, D., & Tortorici, S. (2021). COVID-19 Literatura global sobre doen\cca de coronav\’\irus. Journal of the American College of Surgeons, 233(5), E9–E9.
Mondal, M., Semwal, R., Raj, U., Aier, I., & Varadwaj, P. (2020). An entropy-based classification of breast cancerous genes using microarray data. Neural Computing and Applications, 32(7), 2397–2404.
Tripathi, R., Aier, I., Chakraborty, P., & Varadwaj, P. (2020). Unravelling the role of long non-coding RNA-LINC01087 in breast cancer. Non-coding RNA research, 5(1), 1–10.
Singh, V., Yadav, T., Sahoo, A., & Varadwaj, P. (2020). Understanding Drug Resistance Mechanism of NS3/4A Protease of HCV Using Comparative Molecular Dynamics Simulation. In Proceedings of International Conference on Drug Discovery (ICDD).
Pingali, M., Sahoo, A., Varadwaj, P., & Samanta, S. (2020). Targeting INSM1 in Order to Prevent the Growth of Small Cell Lung Cancer. In Proceedings of International Conference on Drug Discovery (ICDD).
Raj, U., Aier, I., Semwal, R., & Varadwaj, P. (2020). Identification of novel dysregulated key genes in Breast cancer through high throughput ChIP-Seq data analysis (vol 7, 3229, 2017). SCIENTIFIC REPORTS, 10(1).
Agarwal, V., Kumar, D., Varadwaj, P., & Tiwari, A. (2020). Water activity and biomass estimation using digital image processing in solid-state fermentation. Bioresource technology, 308, 123277.
Semwal, R., Aier, I., Raj, U., & Varadwaj, P. (2020). Pr [m]: An Algorithm for Protein Motif Discovery. IEEE/ACM Transactions on Computational Biology and Bioinformatics.
Aier, I., Semwal, R., Sharma, A., & Varadwaj, P. (2020). In silico identification of therapeutic compounds against microRNA targets in drug-resistant pancreatic ductal adenocarcinoma. Journal of Biomolecular Structure and Dynamics, 1–9.
Sharma, A., Kumar, R., Semwal, R., Aier, I., Tyagi, P., & Varadwaj, P. (2020). Deepolf: deep neural network based architecture for predicting odorants and their interacting olfactory receptors. IEEE/ACM Transactions on Computational Biology and Bioinformatics.
Banerjee, R., Bhattacharjee, S., & Varadwaj, P. (2020). Analyses and Forecast for COVID-19 epidemic in India. medRxiv.
Agarwal, V., Tiwari, A., & Varadwaj, P. (2020). Designing of Epitope-Based Vaccine from the Conserved Region of the Spike Glycoprotein of SARS-CoV-2. bioRxiv.
Chaudhary, A., Singh, V., Varadwaj, P., & Mani, A. (2020). Screening natural inhibitors against upregulated G-protein coupled receptors as potential therapeutics of Alzheimer’s disease. Journal of Biomolecular Structure and Dynamics, 1–12.
Gupta, S., Singh, V., Varadwaj, P., Chakravartty, N., Katta, A., Lekkala, S., Thomas, G., Narasimhan, S., Reddy, A., & Reddy Lachagari, V. (2020). Secondary metabolites from spice and herbs as potential multitarget inhibitors of SARS-CoV-2 proteins. Journal of Biomolecular Structure and Dynamics, 1–20.
Semwal, R., & Varadwaj, P. (2020). HumDLoc: Human Protein Subcellular Localization Prediction Using Deep Neural Network. Current genomics, 21(7), 546–557.
Tyagi, P., Vishwakarma, A., Tiwary, U., & Varadwaj, P. (2020). Predicting Smell Perception from Molecular Descriptors Using Machine Learning Approach. In 2020 International Conference Engineering and Telecommunication (En&T) (pp. 1–5).
Kumar, N., Gupta, S., Chand Yadav, T., Pruthi, V., Kumar Varadwaj, P., & Goel, N. (2019). Extrapolation of phenolic compounds as multi-target agents against cancer and inflammation. Journal of Biomolecular Structure and Dynamics, 37(9), 2355–2369.
Gupta, S., Mishra, V., Kumari, S., Chand, R., Varadwaj, P., & others (2019). Deciphering genome-wide WRKY gene family of Triticum aestivum L. and their functional role in response to Abiotic stress. Genes & genomics, 41(1), 79–94.
Raghuwanshi, N., Yadav, T., Srivastava, A., Raj, U., Varadwaj, P., & Pruthi, V. (2019). Structure-based drug designing and identification of Woodfordia fruticosa inhibitors targeted against heat shock protein (HSP70-1) as suppressor for Imiquimod-induced psoriasis like skin inflammation in mice model. Materials Science and Engineering: C, 95, 57–71.
Sharma, A., Kumar, R., Aier, I., Semwal, R., Tyagi, P., & Varadwaj, P. (2019). Sense of smell: structural, functional, mechanistic advancements and challenges in human olfactory research. Current neuropharmacology, 17(9), 891–911.
Aier, I., Semwal, R., Sharma, A., & Varadwaj, P. (2019). A systematic assessment of statistics, risk factors, and underlying features involved in pancreatic cancer. Cancer epidemiology, 58, 104–110.
Kumar, A., Mehta, V., Raj, U., Varadwaj, P., Udayabanu, M., Yennamalli, R., & Singh, T. (2019). Computational and in-vitro validation of natural molecules as potential acetylcholinesterase inhibitors and neuroprotective agents. Current Alzheimer Research, 16(2), 116–127.
Mishra, V., Gupta, S., Chand, R., Yadav, P., Singh, S., Joshi, A., & Varadwaj, P. (2019). Unveiling the transcriptome complexity of the High-and Low-Zinc & Iron accumulating Indian wheat (Triticum aestivum L.) cultivars. bioRxiv, 538819.
Yadav TC, P. (2019). Exploration of interaction mechanism of tyrosol as a potent anti-inflammatory agent. J Biomol Struct Dyn., 1–16.
Semwal, R., Aier, I., Varadwaj, P., & Antsiperov, S. (2019). PROcket, an Efficient Algorithm to Predict Protein Ligand Binding Site. In International Work-Conference on Bioinformatics and Biomedical Engineering (pp. 453–461).
Mishra, V., Gupta, S., Chand, R., Yadav, P., Singh, S., Joshi, A., & Varadwaj, P. (2019). Comparative transcriptomic profiling of high-and low-grain Zinc and iron containing indian wheat genotypes. Current Plant Biology, 18, 100105.
Singh, V., Basu, A., Shivapriya, P., Varadwaj, P., Samanta, S., & Sahoo, A. (2019). Exploration of interactions of ‘blood-nano interface’of carbon-based nanomaterials for biomedical applications. Journal of Materials Research, 34(11), 1950–1964.
Yadav, T., Agarwal, V., Srivastava, A., Raghuwanshi, N., Varadwaj, P., Prasad, R., & Pruthi, V. (2019). Insight into Structure-Function Relationships of $\beta$-Lactamase and BLIPs Interface Plasticity using Protein-Protein Interactions. Current pharmaceutical design, 25(31), 3378–3389.
Aier, I., Semwal, R., Dhara, A., Sen, N., & Varadwaj, P. (2019). An integrated epigenome and transcriptome analysis identifies PAX2 as a master regulator of drug resistance in high grade pancreatic ductal adenocarcinoma. PloS one, 14(10), e0223554.
Aier, I., & Varadwaj, P. (2019). Understanding the mechanism of cell death in gemcitabine resistant pancreatic ductal adenocarcinoma: A systems biology approach. Current Genomics, 20(7), 483–490.
Roy, N., Raj, U., Rai, S., & Varadwaj, P. (2019). Deciphering the novel target genes involved in the epigenetics of hepatocellular carcinoma using graph theory approach. Current Genomics, 20(8), 545–555.
Das, P., Poddar, R., Sarkar, S., Megha, M., Sundararajan, V., Nallapeta, S., Reddy, P., Valadi, J., Varadwaj, P., Singh, T., & others (2018). Twelve years of BIOinformatics CLUb for Experimenting Scientists (Bioclues). PeerJ Preprints, 6, e26503v1.
Mishra, S., Aier, I., Varadwaj, P., & Misra, K. (2018). Integrated Pathways of Candida albicans Revealing Potential Targets and Key Factors Accountable for Pathogenicity. Proceedings of the National Academy of Sciences, India Section B: Biological Sciences, 7(2), 1–10.
Gupta, S., & Varadwaj, P. (2018). A BRIEF OVERVIEW ON MOLECULAR DYNAMICS SIMULATION OF BIOMOLECULAR SYSTEM: PROCEDURE, ALGORITHMS AND APPLICATIONS. INTERNATIONAL JOURNAL OF PHARMACEUTICAL SCIENCES AND RESEARCH, 9(4), 1333–1350.
Gupta, S., Gupta, V., Singh, V., & Varadwaj, P. (2018). Extrapolation of significant genes and transcriptional regulatory networks involved in Zea mays in response in UV-B stress. Genes & genomics, 40(9), 973–990.
Jain, B., Raj, U., & Varadwaj, P. (2018). Drug target interplay: a network-based analysis of human diseases and the drug targets. Current topics in medicinal chemistry, 18(13), 1053–1061.
Kumar, P., Raj, U., Aier, I., & Varadwaj, P. (2018). Decoding methylation patterns in ovarian cancer using publicly available Next-Gen sequencing data. Network Modeling Analysis in Health Informatics and Bioinformatics, 7(1), 1–12.
Jain, B., Raj, U., Varadwaj, P., & Alladi, S. (2018). CADD approaches to counter Tuberculosis. Current Topics in Medicinal Chemistry, 18(13), 1031.
Rai, S., Raj, U., & Varadwaj, P. (2018). Systems biology: a powerful tool for drug development. Current topics in medicinal chemistry, 18(20), 1745–1754.
Mishra, P. (2018). Integrated Pathways of Candida albicans Revealing Potential Targets and Key Factors Accountable for Pathogenicity. Proc. Natl. Acad. Sci., India, Sect. B Biol. Sci., 8(31), 1–10.
Mishra S, M. (2018). Structure-Based Drug Designing and Simulation Studies for Finding Novel Inhibitors of Heat Shock Protein (HSP70) as Suppressors for Psoriasis.. Interdiscip Sci., 10(2), 271–281.
Gupta S, V. (2018). Identification of Novel Abiotic Stress Proteins in Triticum aestivum Through Functional Annotation of Hypothetical Proteins.. Interdiscip Sci., 10(1), 205–220.
Raj, U., Mishra, S., Bhatia, C., Varadwaj, P., & Harit, G. (2018). A Comprehensive Knowledgebase on Cancer Epigenetics. In 2018 International Conference on Bioinformatics and Systems Biology (BSB) (pp. 198–202).
Gupta, S., Kumari, M., Kumar, H., & Varadwaj, P. (2017). Genome-wide analysis of miRNAs and Tasi-RNAs in Zea mays in response to phosphate deficiency. Functional & integrative genomics, 17(2-3), 335–351.
Batra, R., Saripalli, G., Mohan, A., Gupta, S., Gill, K., Varadwaj, P., Balyan, H., & Gupta, P. (2017). Comparative analysis of AGPase genes and encoded proteins in eight monocots and three dicots with emphasis on wheat. Frontiers in plant science, 8, 19.
Kumari, V., Tripathi, R., Patel, S., Raj, U., & Varadwaj, P. (2017). DUSR (Distributed Ultrafast Shape Recognition): a Hadoop Based Tool to Identify Similar Shaped Ligand Molecules. IJPER DOI: 10.5530/ijper.51.1.6, 51(1), 34–42.
Raj, U., Sharma, A., Aier, I., & Varadwaj, P. (2017). In silico characterization of hypothetical proteins obtained from Mycobacterium tuberculosis H37Rv. Network Modeling Analysis in Health Informatics and Bioinformatics, 6(1), 5.
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Raj, U., Pathak, S., Aier, I., Gupta, S., & Varadwaj, P. (2017). IN SILICO FINDING OF THE PUTATIVE DRUG TARGETS FROM HYPOTHETICAL SET OF PROTEINS FOR MYCOBACTERIUM LEPRAE TN. Americas, 33926, 36178.
Gupta, S., Yadav, B., Raj, U., Freilich, S., & Varadwaj, P. (2017). Transcriptomic analysis of soil grown T. aestivum cv. root to reveal the changes in expression of genes in response to multiple nutrients deficiency. Frontiers in plant science, 8, 1025.
Raj, U., Aier, I., Semwal, R., & Varadwaj, P. (2017). Identification of novel dysregulated key genes in Breast cancer through high throughput ChIP-Seq data analysis. Scientific reports, 7(1), 1–11.
Tripathi, R., Chakraborty, P., & Varadwaj, P. (2017). Unraveling long non-coding RNAs through analysis of high-throughput RNA-sequencing data. Non-coding RNA research, 2(2), 111–118.
Yadav, G., Rao, R., Raj, U., & Varadwaj, P. (2017). Computational modeling and analysis of prominent T-cell epitopes for assisting in designing vaccine of ZIKA virus. J. Appl. Pharm. Sci, 7, 116–122.
Chaudhary, A., Yadav, B., Singh, S., Maurya, P., Mishra, A., Srivastva, S., Varadwaj, P., Singh, N., & Mani, A. (2017). Docking-based screening of Ficus religiosa phytochemicals as inhibitors of human histamine h2 receptor. Pharmacognosy magazine, 13(Suppl 3), S706.
Semwal, R., Aier, I., Raj, U., & Varadwaj, P. (2017). Pharmadoop: a tool for pharmacophore searching using Hadoop framework. Network Modeling Analysis in Health Informatics and Bioinformatics, 6(1), 1–9.
Prashant Kumar, A. (2017). Docking-based screening of Ficus religiosa phytochemicals as inhibitors of human histamine H2 receptor. In 4th International Conference on Emerging Trends in Protein Science & Proteomics,GENOPRO 2017, At Invertis University,Bareilly.
Sunil Patel, P. (2017). DeepInteract: Deep Neural Network Based Protein-Protein Interaction Prediction Tool. Current Bioinformatics, 12(06), 551–557.
Raj U, V. (2017). Molecular docking and dynamics simulation study of flavonoids as BET bromodomain inhibitors. J Biomol Struct Dyn., 35(11), 2351–2362.
Kumar Chaudhary, K, Raj, U, Kumar Varadwaj, P, Mishra, N. “Novel Potent Plasmepsin-I (PMI) Inhibitors: An In-Silico Approach”. Current Proteomics 2016; 13(3):196–205.
Raj, U, Varadwaj, P. “Erratum to: Flavonoids as Multi-Target Inhibitors for Proteins Associated with Ebola Virus: In Silico Discovery Using Virtual Screening and Molecular Docking Studies”. Interdisciplinary Sciences: Computational Life Sciences 2016; 8:142–142.
Kumar, H, Tichkule, S, Raj, U, Gupta, S, Srivastava, S, Varadwaj, P. “Effect of STAT3 inhibitor in chronic myeloid leukemia associated signaling pathway: a mathematical modeling, simulation and systems biology study”. 3 Biotech 2016; 6:1–12.
Raj, U, Varadwaj, P. “Flavonoids as multi-target inhibitors for proteins associated with Ebola virus: In silico discovery using virtual screening and molecular docking studies”. Interdisciplinary Sciences: Computational Life Sciences 2016; 8:132–141.
Bedre, R, Raj, U, Misra, S, Varadwaj, P. “Antiviral therapy with nucleotide/nucleoside analogues in chronic hepatitis B: A meta-analysis of prospective randomized trials”. Indian Journal of Gastroenterology 2016; 35:75–82.
Tripathi, R, Patel, S, Kumari, V, Chakraborty, P, Varadwaj, P. “DeepLNC, a long non-coding RNA prediction tool using deep neural network”. Network Modeling Analysis in Health Informatics and Bioinformatics 2016; 5:1–14.
Gupta, S, Yadav, B, Freilich, S, Varadwaj, PTRANSCRIPTOMIC ANALYSIS OF WHEAT ROOT IN RESPONSE TO ESSENTIAL NUTRIENT DEFICIENCY: A GEMOME-WIDE COMPARATIVE STUDY. In The tenth international conference on bioinformatics of genome regulation and structure$\backslash$systems biology 2016 (pp. 98–98).
Tripathi, R, Soni, A, Varadwaj, P. “Integrated analysis of dysregulated lncRNA expression in breast cancer cell identified by RNA-seq study”. Non-coding RNA research 2016; 1(1):35–42.
Bedre, R, Raj, U, Varadwaj, P. “Efficacy of Sucralfate in Reflux Disease in Comparison to H2–Receptor Antagonist: A Meta-Analysis of Randomized Trials”. Biology, Engineering, Medicine and Science Reports 2016; 2(1):18–22.
Tripathi, R, Sharma, P, Chakraborty, P, Varadwaj, PCount-based transcriptome analysis to identify differentially expressed genes for breast cancer. In 2016 International Conference on Bioinformatics and Systems Biology (BSB) 2016 (pp. 1–5).
Raj, U, Kumar, H, Gupta, S, Varadwaj, P. “Exploring dual inhibitors for STAT1 and STAT5 receptors utilizing virtual screening and dynamics simulation validation”. Journal of Biomolecular Structure and Dynamics 2016; 34(10):2115–2129.
Aier, I, Varadwaj, P, Raj, U. “Structural insights into conformational stability of both wild-type and mutant EZH2 receptor”. Scientific reports 2016; 6(1):1–10.
Rai, S, Raj, U, Tichkule, S, Kumar, H, Mishra, S, Sharma, N, Buddham, R, Raghav, D, Varadwaj, P. “Recent trends in in-silico drug discovery”. International Journal for Computational Biology (IJCB) 2016; 5(1):54–76.
Raj, U, Kumar, H, Gupta, S, Kumar Varadwaj, P. “Identification of Novel Inhibitors for Disrupting EZH2-EED Interactions Involved in Cancer Epigenetics: An In-Silico Approach”. Current Proteomics 2016; 13(4):313–321.
Kumar, H, Raj, U, Gupta, S, Varadwaj, P. “In-silico identification of inhibitors against mutated BCR-ABL protein of chronic myeloid leukemia: a virtual screening and molecular dynamics simulation study”. Journal of Biomolecular Structure and Dynamics 2016; 34(10):2171–2183.
Kumar, H, Raj, U, Srivastava, S, Gupta, S, Varadwaj, P. “Identification of dual natural inhibitors for chronic myeloid leukemia by virtual screening, molecular dynamics simulation and ADMET analysis”. Interdisciplinary Sciences: Computational Life Sciences 2016; 8:241–252.
Gupta, S, Raj, U, Kumar, H, Varadwaj, P, Gupta, AEmbryo and endosperm specific comparative transcriptome analysis of triticum aestivum in response to ABA and H 2 O 2 stress. In 2016 International Conference on Bioinformatics and Systems Biology (BSB) 2016 (pp. 1–4).
Lawrence, A, Shukla, R, Raj, U, Varadwaj, PEstimating percentage epigenetic modifications in human genome using NGS data. In 2016 International Conference on Bioinformatics and Systems Biology (BSB) 2016 (pp. 1–4).
Tripathi, R, Sharma, P, Chakraborty, P, Varadwaj, P. “Next-generation sequencing revolution through big data analytics”. Frontiers in life science 2016; 9(2):119–149.
Tripathi, R, Sharma, P, Chakraborty, P, Varadwaj, PIn silico identification of novel virulent protein of phytophthora infestans related to late blight disease. In 2016 International Conference on Bioinformatics and Systems Biology (BSB) 2016 (pp. 1–5).
[1]U. Raj, H. Kumar, and P. Kumar Varadwaj, “3D structure generation, molecular dynamics and docking studies of IRHOM2 protein involved in cancer & rheumatoid arthritis,” Current computer-aided drug design, vol. 11, no. 4, pp. 325–335, 2015.
[2]H. Kumar, U. Raj, S. Gupta, R. Tripathi, and P. Varadwaj, “Systemic review on chronic myeloid leukemia: therapeutic targets, pathways and inhibitors,” J Nucl Med Radiat Ther, vol. 6, no. 6, pp. 257–63, 2015.
[3]H. Kumar, S. Tichkule, U. Raj, S. Gupta, S. Srivastava, and P. K. Varadwaj, “Parameters Involved in Autophosphorylation in Chronic Myeloid Leukemia: a Systems Biology Approach,” Asian Pacific Journal of Cancer Prevention, vol. 16, no. 13, pp. 5273–5278, 2015.
[4]S. Gupta, A. Jadaun, H. Kumar, U. Raj, P. K. Varadwaj, and A. Rao, “Exploration of new drug-like inhibitors for serine/threonine protein phosphatase 5 of Plasmodium falciparum: a docking and simulation study,” Journal of Biomolecular Structure and Dynamics, vol. 33, no. 11, pp. 2421–2441, 2015.
[5]R. Tripathi, V. Kumari, S. Patel, Y. Singh, and P. Varadwaj, “Prediction of IncRNA using deep learning approach,” in International Conference on Advances in Biotechnology (BioTech). Proceedings, 2015, pp. 138–142.
[6]P. Gupta, U. Raj, and P. K. Varadwaj, “Prediction of Blood Brain Barrier Permeability of Ligands Using Sequential Floating Forward Selection and Support Vector Machine,” in Computational Intelligence in Data Mining-Volume 1: Proceedings of the International Conference on CIDM, 20-21 December 2014, 2015, pp. 447–458.
[7]H. Kumar, S. Srivastava, and P. K. Varadwaj, “DPAAR: a Database of Perfect Amino Acid Repeat,” International Journal for Computational Biology (IJCB), vol. 4, no. 1, pp. 62–66, 2015.
[8]S. Gupta, A. R. Rao, P. K. Varadwaj, S. De, and T. Mohapatra, “Extrapolation of inter domain communications and substrate binding cavity of camel HSP70 1A: a molecular modeling and dynamics simulation study,” PloS one, vol. 10, no. 8, p. e0136630, 2015.
[9]U. Raj, H. Kumar, S. Gupta, and P. K. Varadwaj, “Novel DOT1L receptornatural inhibitors involved in mixed lineage leukemia: a virtual screening, molecular docking and dynamics simulation study,” Asian Pacific Journal of Cancer Prevention, vol. 16, no. 9, pp. 3817–3825, 2015.
[10]U. Raj, Y. Jain, H. Kumar, S. Gupta, R. Tripathi, and others, “In Silico Identification of Novel Glucagon Receptor Antagonist for the Treatment of Type 2 Diabetes Mellitus,” Enz Eng, vol. 4, no. 128, p. 2, 2015.